BLASTP 2.2.26 [Sep-21-2011]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.


Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 040760
         (108 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|1UXY|A Chain A, Murb Mutant With Ser 229 Replaced By Ala, Complex With
           Enolpyruvyl-Udp-N-Acetylglucosamine
          Length = 340

 Score = 28.9 bits (63), Expect = 0.70,   Method: Composition-based stats.
 Identities = 20/63 (31%), Positives = 31/63 (49%), Gaps = 8/63 (12%)

Query: 38  LEGTGGNLLLRGKQGSQTSDQPKEEYIHVRARRGQATNSHSLVERVRREKISERMKFLQN 97
           LE   G +++   +G +  D+P   Y+HV    G   N H LV    +  + E M  L+N
Sbjct: 53  LEDYRGTVIINRIKGIEIHDEPDAWYLHV----GAGENWHRLV----KYTLQEGMPGLEN 104

Query: 98  LSL 100
           L+L
Sbjct: 105 LAL 107


>pdb|2Q85|A Chain A, Crystal Structure Of E. Coli Mur B Bound To A Naphthyl
           Tetronic Acid Inihibitor
 pdb|1MBB|A Chain A, Oxidoreductase
 pdb|1MBT|A Chain A, Oxidoreductase
          Length = 342

 Score = 28.9 bits (63), Expect = 0.72,   Method: Composition-based stats.
 Identities = 20/63 (31%), Positives = 31/63 (49%), Gaps = 8/63 (12%)

Query: 38  LEGTGGNLLLRGKQGSQTSDQPKEEYIHVRARRGQATNSHSLVERVRREKISERMKFLQN 97
           LE   G +++   +G +  D+P   Y+HV    G   N H LV    +  + E M  L+N
Sbjct: 55  LEDYRGTVIINRIKGIEIHDEPDAWYLHV----GAGENWHRLV----KYTLQEGMPGLEN 106

Query: 98  LSL 100
           L+L
Sbjct: 107 LAL 109


>pdb|2MBR|A Chain A, Murb Wild Type, Complex With Enolpyruvyl-Udp-N-
           Acetylglucosamine
          Length = 340

 Score = 28.9 bits (63), Expect = 0.73,   Method: Composition-based stats.
 Identities = 20/63 (31%), Positives = 31/63 (49%), Gaps = 8/63 (12%)

Query: 38  LEGTGGNLLLRGKQGSQTSDQPKEEYIHVRARRGQATNSHSLVERVRREKISERMKFLQN 97
           LE   G +++   +G +  D+P   Y+HV    G   N H LV    +  + E M  L+N
Sbjct: 53  LEDYRGTVIINRIKGIEIHDEPDAWYLHV----GAGENWHRLV----KYTLQEGMPGLEN 104

Query: 98  LSL 100
           L+L
Sbjct: 105 LAL 107


>pdb|3OLM|A Chain A, Structure And Function Of A Ubiquitin Binding Site Within
           The Catalytic Domain Of A Hect Ubiquitin Ligase
          Length = 429

 Score = 27.7 bits (60), Expect = 1.6,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 26/59 (44%)

Query: 47  LRGKQGSQTSDQPKEEYIHVRARRGQATNSHSLVERVRREKISERMKFLQNLSLAIEET 105
           + G +  Q SD P+   I       Q   SH+   RV   +  +     Q L+LA+EET
Sbjct: 365 VNGFKDLQGSDGPRRFTIEKAGEVQQLPKSHTCFNRVDLPQYVDYDSMKQKLTLAVEET 423


>pdb|4ATI|A Chain A, Mitf:m-Box Complex
 pdb|4ATI|B Chain B, Mitf:m-Box Complex
 pdb|4ATK|A Chain A, Mitf:e-Box Complex
 pdb|4ATK|B Chain B, Mitf:e-Box Complex
          Length = 118

 Score = 26.2 bits (56), Expect = 5.1,   Method: Compositional matrix adjust.
 Identities = 14/37 (37%), Positives = 22/37 (59%)

Query: 59 PKEEYIHVRARRGQATNSHSLVERVRREKISERMKFL 95
          P E      A+  Q  ++H+L+ER RR  I++R+K L
Sbjct: 13 PTESEARALAKERQKKDNHNLIERRRRFNINDRIKEL 49


>pdb|4G2C|A Chain A, Dyp2 From Amycolatopsis Sp. Atcc 39116
 pdb|4G2C|B Chain B, Dyp2 From Amycolatopsis Sp. Atcc 39116
          Length = 493

 Score = 26.2 bits (56), Expect = 5.2,   Method: Composition-based stats.
 Identities = 11/22 (50%), Positives = 16/22 (72%)

Query: 51  QGSQTSDQPKEEYIHVRARRGQ 72
           +GS  ++ P+EE  H+ ARRGQ
Sbjct: 357 RGSGGAEAPEEERKHLMARRGQ 378


>pdb|3LJN|A Chain A, Ankyrin Repeat Protein From Leishmania Major
          Length = 364

 Score = 26.2 bits (56), Expect = 5.3,   Method: Composition-based stats.
 Identities = 12/26 (46%), Positives = 14/26 (53%)

Query: 56 SDQPKEEYIHVRARRGQATNSHSLVE 81
          SD    E IHV AR+GQ      L+E
Sbjct: 16 SDDENXEKIHVAARKGQTDEVRRLIE 41


  Database: pdbaa
    Posted date:  Mar 3, 2013 10:34 PM
  Number of letters in database: 14,973,337
  Number of sequences in database:  62,578
  
Lambda     K      H
   0.305    0.125    0.330 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,080,666
Number of Sequences: 62578
Number of extensions: 122726
Number of successful extensions: 297
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 287
Number of HSP's gapped (non-prelim): 13
length of query: 108
length of database: 14,973,337
effective HSP length: 72
effective length of query: 36
effective length of database: 10,467,721
effective search space: 376837956
effective search space used: 376837956
T: 11
A: 40
X1: 16 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (21.9 bits)
S2: 45 (21.9 bits)